\relax 
\catcode`"\active
\ifx\hyper@anchor\@undefined
\global \let \oldcontentsline\contentsline
\gdef \contentsline#1#2#3#4{\oldcontentsline{#1}{#2}{#3}}
\global \let \oldnewlabel\newlabel
\gdef \newlabel#1#2{\newlabelxx{#1}#2}
\gdef \newlabelxx#1#2#3#4#5#6{\oldnewlabel{#1}{{#2}{#3}}}
\AtEndDocument{\let \contentsline\oldcontentsline
\let \newlabel\oldnewlabel}
\else
\global \let \hyper@last\relax 
\fi

\citation{Tigges2009}
\select@language{slovene}
\@writefile{toc}{\select@language{slovene}}
\@writefile{lof}{\select@language{slovene}}
\@writefile{lot}{\select@language{slovene}}
\newlabel{eq:pip}{{1}{1}{Inducible system\relax }{equation.0.1}{}}
\citation{Alon2007a}
\newlabel{eq:pc}{{2}{2}{Inducible system\relax }{equation.0.2}{}}
\newlabel{eq:rip}{{3}{2}{Inducible system\relax }{equation.0.3}{}}
\newlabel{eq:rg}{{4}{2}{Inducible system\relax }{equation.0.4}{}}
\newlabel{eq:rep}{{5}{2}{Transcription factors\relax }{equation.0.5}{}}
\citation{Gardner2000,Zakharova2011}
\newlabel{eq:reptransfer}{{6}{3}{Transcription factors\relax }{equation.0.6}{}}
\newlabel{eq:act}{{7}{3}{Transcription factors\relax }{equation.0.7}{}}
\newlabel{eq:acttransfer}{{8}{3}{Transcription factors\relax }{equation.0.8}{}}
\providecommand*\caption@xref[2]{\@setref\relax\@undefined{#1}}
\newlabel{fig:tal_krab_eff}{{\caption@xref {fig:tal_krab_eff}{ on input line 68}}{4}{Transcription factors\relax }{figure.caption.5}{}}
\newlabel{sub@fig:tal_krab_eff}{{}{4}{Transcription factors\relax }{figure.caption.5}{}}
\newlabel{fig:tal_vp16_eff}{{\caption@xref {fig:tal_vp16_eff}{ on input line 74}}{4}{Transcription factors\relax }{figure.caption.5}{}}
\newlabel{sub@fig:tal_vp16_eff}{{a}{4}{Transcription factors\relax }{figure.caption.5}{}}
\@writefile{lof}{\contentsline {figure}{\numberline {1}{\ignorespaces (a) Transcription factor curve for Tal97Krab repressor complex (blue) and Tal57Krab repressor complex (red). The x-axis represents the input ratio of repressor-including plasmids versus plasmids including the corresponding binding sites. The y-axis shows the rate of repression, i. e. the remaining percentage of the original transcription rate during repression. (b) Transcription factor curve for TAL57/97:VP16 activator curve. The x-axis represents the input ratio of activator-including plasmids versus plasmids including the corresponding binding sites. The y-axis shows the rate of activation, i.e. the factor of increased transcription rate during activation.\relax }}{4}{figure.caption.5}}
\newlabel{fig:eff_curves}{{1}{4}{(a) Transcription factor curve for Tal97Krab repressor complex (blue) and Tal57Krab repressor complex (red). The x-axis represents the input ratio of repressor-including plasmids versus plasmids including the corresponding binding sites. The y-axis shows the rate of repression, i. e. the remaining percentage of the original transcription rate during repression. (b) Transcription factor curve for TAL57/97:VP16 activator curve. The x-axis represents the input ratio of activator-including plasmids versus plasmids including the corresponding binding sites. The y-axis shows the rate of activation, i.e. the factor of increased transcription rate during activation.\relax \relax }{figure.caption.5}{}}
\@writefile{lot}{\contentsline {table}{\numberline {1}{\ignorespaces Possible states of the bistable switch system.\relax }}{4}{table.caption.7}}
\citation{Chatterjee2008,Malphettes2006}
\@writefile{lot}{\contentsline {table}{\numberline {2}{\ignorespaces Disjunctive classes of switch behaviours on a give time interval. The rules to determine the classification are evaluated for fixed points of the system on a given time interval.\relax }}{5}{table.caption.8}}
\@writefile{lof}{\contentsline {figure}{\numberline {2}{\ignorespaces Simulation of a bistable switch for $t = 14500$ min (a) Concentrations of the reporters. (b) Phase space of the system with state thresholds. (c) Concentrations of the inducers and active inducible proteins. (d) Concentrations of TAL97KRAB and TAL57KRAB proteins.\relax }}{6}{figure.caption.11}}
\@writefile{lof}{\contentsline {figure}{\numberline {3}{\ignorespaces Stability analysis of a bistable switch with color code, described in Table~2. (a) State convergenge in the absence of inducers. (b) Pristinamycin effects on the system. (c) Rapalog effect on the system. (d) Hill coefficient variability effect.\relax }}{7}{figure.caption.12}}
\@writefile{lof}{\contentsline {figure}{\numberline {4}{\ignorespaces Simulation of a bistable switch for $t = 20000$ min (a) Concentrations of the reporters. (b) Phase space of the system with state thresholds. (c) Concentrations of the inducers and active inducible proteins. (d) Concentrations of TAL97VP16 and TAL57VP16 proteins.\relax }}{9}{figure.caption.14}}
\@writefile{lof}{\contentsline {figure}{\numberline {5}{\ignorespaces Stability analysis of a bistable switch with a positive feedback loop. Used is the color code, described in Table~2. (a) State convergenge in the absence of inducers. (b) Pristinamycin effects on the system. (c) Rapamycin effect on the system. (d) Plasmid dosage effect on NEPTUN$\rightarrow $mCITRIN state transition. (e) Plasmid dosage effect on mCITRIN$\rightarrow $NEPTUN state transition.\relax }}{10}{figure.caption.15}}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Alon2007a}
\citation{Alon2007a}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009,Batard2001}
\@writefile{lof}{\contentsline {figure}{\numberline {6}{\ignorespaces A bistable switch construction scheme.\relax }}{11}{figure.caption.17}}
\@writefile{lot}{\contentsline {table}{\numberline {3}{\ignorespaces The observed chemical species.\relax }}{11}{table.caption.18}}
\@writefile{lot}{\contentsline {table}{\numberline {4}{\ignorespaces Model parameters and corresponding initial values.\relax }}{12}{table.caption.19}}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Alon2007a}
\citation{Alon2007a}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009}
\citation{Tigges2009,Batard2001}
\@writefile{lof}{\contentsline {figure}{\numberline {7}{\ignorespaces A bistable switch with positive feedback loop construction scheme.\relax }}{14}{figure.caption.21}}
\@writefile{lot}{\contentsline {table}{\numberline {5}{\ignorespaces The observed chemical species.\relax }}{15}{table.caption.22}}
\@writefile{lot}{\contentsline {table}{\numberline {6}{\ignorespaces Model parameters and corresponding initial values.\relax }}{15}{table.caption.23}}
\bibdata{Simulations}
\bibcite{Alon2007a}{1}
\bibcite{Chatterjee2008}{2}
\bibcite{Gardner2000}{3}
\bibcite{Batard2001}{4}
\bibcite{Malphettes2006}{5}
\bibcite{Tigges2009}{6}
\bibcite{Zakharova2011}{7}
\bibstyle{plain}
